miRNA display CGI


Results 1 - 20 of 49 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
16483 3' -60.2 NC_004084.1 + 437 0.74 0.163666
Target:  5'- aCGGCGAccuCGAGAcGGCGGagGACGCCc -3'
miRNA:   3'- -GCCGUU---GCUCUaCCGCCggCUGCGGc -5'
16483 3' -60.2 NC_004084.1 + 580 0.75 0.136101
Target:  5'- cCGGCcgaggaacuCGAGAUGaCGGCCGACGUCa -3'
miRNA:   3'- -GCCGuu-------GCUCUACcGCCGGCUGCGGc -5'
16483 3' -60.2 NC_004084.1 + 1226 0.68 0.385111
Target:  5'- uCGGCGGCGGGAUcgagGGCGaUCG-CGCCc -3'
miRNA:   3'- -GCCGUUGCUCUA----CCGCcGGCuGCGGc -5'
16483 3' -60.2 NC_004084.1 + 2258 0.73 0.191185
Target:  5'- gGGCcuccgaaagcugGAgGAGAUGGggcUGGUCGACGCCGa -3'
miRNA:   3'- gCCG------------UUgCUCUACC---GCCGGCUGCGGC- -5'
16483 3' -60.2 NC_004084.1 + 2760 0.67 0.46118
Target:  5'- aGGUcaucAACGAGGUGgaGCGcGCCGAugggugagacggaccCGCCGa -3'
miRNA:   3'- gCCG----UUGCUCUAC--CGC-CGGCU---------------GCGGC- -5'
16483 3' -60.2 NC_004084.1 + 7476 0.66 0.473655
Target:  5'- gCGGCGACGGcGAaGGCgagacgagcaagucGGCCGACGgggagacugcgcCCGa -3'
miRNA:   3'- -GCCGUUGCU-CUaCCG--------------CCGGCUGC------------GGC- -5'
16483 3' -60.2 NC_004084.1 + 8802 0.67 0.429404
Target:  5'- cCGGCGACGAGAUcuCcGUCGACGgCGa -3'
miRNA:   3'- -GCCGUUGCUCUAccGcCGGCUGCgGC- -5'
16483 3' -60.2 NC_004084.1 + 9705 0.69 0.313363
Target:  5'- -cGCggUGAGuUGGCcgacGCCGAUGCCGg -3'
miRNA:   3'- gcCGuuGCUCuACCGc---CGGCUGCGGC- -5'
16483 3' -60.2 NC_004084.1 + 9847 0.67 0.447943
Target:  5'- aGGuCGGCGAG--GGCGGCUcACGCgGg -3'
miRNA:   3'- gCC-GUUGCUCuaCCGCCGGcUGCGgC- -5'
16483 3' -60.2 NC_004084.1 + 10018 0.73 0.17695
Target:  5'- -----cCGAGAUGGCGGCCacGAUGCCGc -3'
miRNA:   3'- gccguuGCUCUACCGCCGG--CUGCGGC- -5'
16483 3' -60.2 NC_004084.1 + 11096 0.68 0.371589
Target:  5'- uCGGCGACGAGAUcgccguucGCGGCuCGAaggaugucccagagcCGCUGg -3'
miRNA:   3'- -GCCGUUGCUCUAc-------CGCCG-GCU---------------GCGGC- -5'
16483 3' -60.2 NC_004084.1 + 15276 0.69 0.351922
Target:  5'- aGGCGGCGGcaauauccGGCGGCUGGCGaCGg -3'
miRNA:   3'- gCCGUUGCUcua-----CCGCCGGCUGCgGC- -5'
16483 3' -60.2 NC_004084.1 + 17270 0.69 0.347122
Target:  5'- uCGGCGAUGcccucgguggaggcGGUGGCGGCgGugGCgGc -3'
miRNA:   3'- -GCCGUUGCu-------------CUACCGCCGgCugCGgC- -5'
16483 3' -60.2 NC_004084.1 + 18024 0.68 0.367431
Target:  5'- aCGGCGAgugugauguggucCGAGAccaugucGGCGGCUuuGAUGCCGc -3'
miRNA:   3'- -GCCGUU-------------GCUCUa------CCGCCGG--CUGCGGC- -5'
16483 3' -60.2 NC_004084.1 + 21759 0.7 0.284884
Target:  5'- aCGGUuccACGGGGaucGGCGGCauCGACGUCGg -3'
miRNA:   3'- -GCCGu--UGCUCUa--CCGCCG--GCUGCGGC- -5'
16483 3' -60.2 NC_004084.1 + 22472 0.71 0.264894
Target:  5'- aCGGCuGCGuGGUGGCGGCUccaguucggGACGUa- -3'
miRNA:   3'- -GCCGuUGCuCUACCGCCGG---------CUGCGgc -5'
16483 3' -60.2 NC_004084.1 + 22666 0.69 0.328392
Target:  5'- aCGGgAuCGAGAUGGCagaGGCCuGGgGCCa -3'
miRNA:   3'- -GCCgUuGCUCUACCG---CCGG-CUgCGGc -5'
16483 3' -60.2 NC_004084.1 + 23081 0.66 0.496129
Target:  5'- -cGCGACGAGGUGGaCG-UCGGCGaCCu -3'
miRNA:   3'- gcCGUUGCUCUACC-GCcGGCUGC-GGc -5'
16483 3' -60.2 NC_004084.1 + 25263 0.66 0.500087
Target:  5'- gCGGUucuCGGGAUcguucugguagguccGGuUGGCCuGGCGCCGg -3'
miRNA:   3'- -GCCGuu-GCUCUA---------------CC-GCCGG-CUGCGGC- -5'
16483 3' -60.2 NC_004084.1 + 25463 0.68 0.385111
Target:  5'- uGGCuuCGAGGUucGCGGgCGGCGUCa -3'
miRNA:   3'- gCCGuuGCUCUAc-CGCCgGCUGCGGc -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.